Keywords and Synonyms
Phylogeny reconstruction; Distance methods; Performance analysis; Robustness; Safety radius approach ; Optimal radius
Problem Definition
A phylogeny is an evolutionary tree tracing the shared history, including common ancestors, of a set of extant taxa. Phylogenies have been historically reconstructed using character-based (parsimony) methods, but in recent years the advent of DNA sequencing, along with the development of large databases of molecular data, has led to more involved methods. Sophisticated techniques such as likelihood and Bayesian methods are used to estimate phylogenies with sound statistical justifications. However, these statistical techniques suffer from the discrete nature of tree topology space. Since the number of tree topologies increases exponentially as a function of the number of taxa, and each topology requires separate likelihood calculation, it is important to restrict the search space and to design efficient heuristics. Distance...
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Recommended Reading
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Desper, R., Gascuel, O. (2008). Distance-Based Phylogeny Reconstruction (Optimal Radius). In: Kao, MY. (eds) Encyclopedia of Algorithms. Springer, Boston, MA. https://doi.org/10.1007/978-0-387-30162-4_115
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DOI: https://doi.org/10.1007/978-0-387-30162-4_115
Publisher Name: Springer, Boston, MA
Print ISBN: 978-0-387-30770-1
Online ISBN: 978-0-387-30162-4
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